1
|
Hernández-Ospina DA, Osorio-González CS, Miri S, Kaur Brar S. New perspectives on the anaerobic degradation of BTEX: Mechanisms, pathways, and intermediates. CHEMOSPHERE 2024; 361:142490. [PMID: 38821131 DOI: 10.1016/j.chemosphere.2024.142490] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/05/2024] [Revised: 05/27/2024] [Accepted: 05/29/2024] [Indexed: 06/02/2024]
Abstract
Aromatic hydrocarbons like benzene, toluene, xylene, and ethylbenzene (BTEX) can escape into the environment from oil and gas operations and manufacturing industries posing significant health risks to humans and wildlife. Unlike conventional clean-up methods used, biological approaches such as bioremediation can provide a more energy and labour-efficient and environmentally friendly option for sensitive areas such as nature reserves and cities, protecting biodiversity and public health. BTEX contamination is often concentrated in the subsurface of these locations where oxygen is rapidly depleted, and biodegradation relies on anaerobic processes. Thus, it is critical to understand the anaerobic biodegradation characteristics as it has not been explored to a major extent. This review presents novel insights into the degradation mechanisms under anaerobic conditions and presents a detailed description and interconnection between them. BTEX degradation can follow four activation mechanisms: hydroxylation, carboxylation, methylation, and fumarate addition. Hydroxylation is one of the mechanisms that explains the transformation of benzene into phenol, toluene into benzyl alcohol or p-cresol, and ethylbenzene into 1-phenylethanol. Carboxylation to benzoate is thought to be the primary mechanism of degradation for benzene. Despite being poorly understood, benzene methylation has been also reported. Moreover, fumarate addition is the most widely reported mechanism, present in toluene, ethylbenzene, and xylene degradation. Further research efforts are required to better elucidate new and current alternative catabolic pathways. Likewise, a comprehensive analysis of the enzymes involved as well as the development of advance tools such as omic tools can reveal bottlenecks degradation steps and create more effective on-site strategies to address BTEX pollution.
Collapse
Affiliation(s)
- Diego A Hernández-Ospina
- Department of Civil Engineering, Lassonde School of Engineering, York University, North York, Toronto, Ontario, Canada, M3J 1P3
| | - Carlos S Osorio-González
- Department of Civil Engineering, Lassonde School of Engineering, York University, North York, Toronto, Ontario, Canada, M3J 1P3
| | - Saba Miri
- Department of Civil Engineering, Lassonde School of Engineering, York University, North York, Toronto, Ontario, Canada, M3J 1P3
| | - Satinder Kaur Brar
- Department of Civil Engineering, Lassonde School of Engineering, York University, North York, Toronto, Ontario, Canada, M3J 1P3.
| |
Collapse
|
2
|
Brito HA, Napp AP, Pereira E, Bach E, Borowski JVB, Passaglia LMP, Melo VMM, Moreira R, Foster EJ, Lopes FC, Vainstein MH. Enhanced low-cost lipopeptide biosurfactant production by Bacillus velezensis from residual glycerin. Bioprocess Biosyst Eng 2024:10.1007/s00449-024-03051-y. [PMID: 38916653 DOI: 10.1007/s00449-024-03051-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2024] [Accepted: 06/17/2024] [Indexed: 06/26/2024]
Abstract
Biosurfactants (BSFs) are molecules produced by microorganisms from various carbon sources, with applications in bioremediation and petroleum recovery. However, the production cost limits large-scale applications. This study optimized BSFs production by Bacillus velezensis (strain MO13) using residual glycerin as a substrate. The spherical quadratic central composite design (CCD) model was used to standardize carbon source concentration (30 g/L), temperature (34 °C), pH (7.2), stirring (239 rpm), and aeration (0.775 vvm) in a 5-L bioreactor. Maximum BSFs production reached 1527.6 mg/L of surfactins and 176.88 mg/L of iturins, a threefold increase through optimization. Microbial development, substrate consumption, concentration of BSFs, and surface tension were also evaluated on the bioprocess dynamics. Mass spectrometry Q-TOF-MS identified five surfactin and two iturin isoforms produced by B. velezensis MO13. This study demonstrates significant progress on BSF production using industrial waste as a microbial substrate, surpassing reported concentrations in the literature.
Collapse
Affiliation(s)
- Henrique A Brito
- Programa de Pós-Graduação em Biologia Celular e Molecular, Centro de Biotecnologia, Universidade Federal do Rio Grande do Sul (UFRGS), Av. Bento Gonçalves 9500, Porto Alegre, RS, 91501-970, Brazil
| | - Amanda P Napp
- Programa de Pós-Graduação em Biologia Celular e Molecular, Centro de Biotecnologia, Universidade Federal do Rio Grande do Sul (UFRGS), Av. Bento Gonçalves 9500, Porto Alegre, RS, 91501-970, Brazil
| | - Evandro Pereira
- Programa de Pós-Graduação em Biologia Celular e Molecular, Centro de Biotecnologia, Universidade Federal do Rio Grande do Sul (UFRGS), Av. Bento Gonçalves 9500, Porto Alegre, RS, 91501-970, Brazil
| | - Evelise Bach
- Programa de Pós-Graduação em Biologia Celular e Molecular, Centro de Biotecnologia, Universidade Federal do Rio Grande do Sul (UFRGS), Av. Bento Gonçalves 9500, Porto Alegre, RS, 91501-970, Brazil
- Departamento de Biofísica, Instituto de Biociências, Universidade Federal do Rio Grande do Sul, Av. Bento Gonçalves 9500, Porto Alegre, RS, 91501-970, Brazil
| | - João V B Borowski
- Programa de Pós-Graduação em Biologia Celular e Molecular, Centro de Biotecnologia, Universidade Federal do Rio Grande do Sul (UFRGS), Av. Bento Gonçalves 9500, Porto Alegre, RS, 91501-970, Brazil
| | - Luciane M P Passaglia
- Programa de Pós-Graduação em Biologia Celular e Molecular, Centro de Biotecnologia, Universidade Federal do Rio Grande do Sul (UFRGS), Av. Bento Gonçalves 9500, Porto Alegre, RS, 91501-970, Brazil
| | - Vania M M Melo
- Laboratório de Ecologia Microbiana e Biotecnologia, Departamento de Biologia, Universidade Federal Do Ceará, Fortaleza, Brasil
| | - Raphael Moreira
- Institute for Applied and Physical Chemistry, University of Bremen, 28359, Bremen, Germany
| | - E Johan Foster
- Department of Chemical and Biological Engineering, University of British Columbia, 2360 East Mall, Vancouver, Canada
| | - Fernanda C Lopes
- Programa de Pós-Graduação em Biologia Celular e Molecular, Centro de Biotecnologia, Universidade Federal do Rio Grande do Sul (UFRGS), Av. Bento Gonçalves 9500, Porto Alegre, RS, 91501-970, Brazil
- Departamento de Biofísica, Instituto de Biociências, Universidade Federal do Rio Grande do Sul, Av. Bento Gonçalves 9500, Porto Alegre, RS, 91501-970, Brazil
| | - Marilene H Vainstein
- Programa de Pós-Graduação em Biologia Celular e Molecular, Centro de Biotecnologia, Universidade Federal do Rio Grande do Sul (UFRGS), Av. Bento Gonçalves 9500, Porto Alegre, RS, 91501-970, Brazil.
- Departamento de Biologia Molecular e Biotecnologia, Instituto de Biociências, Universidade Federal do Rio Grande do Sul, Av. Bento Gonçalves 9500, Porto Alegre, RS, 91501-970, Brazil.
| |
Collapse
|
3
|
James A, Rene ER, Bilyaminu AM, Chellam PV. Advances in amelioration of air pollution using plants and associated microbes: An outlook on phytoremediation and other plant-based technologies. CHEMOSPHERE 2024; 358:142182. [PMID: 38685321 DOI: 10.1016/j.chemosphere.2024.142182] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/21/2024] [Revised: 04/16/2024] [Accepted: 04/26/2024] [Indexed: 05/02/2024]
Abstract
Globally, air pollution is an unfortunate aftermath of rapid industrialization and urbanization. Although the best strategy is to prevent air pollution, it is not always feasible. This makes it imperative to devise and implement techniques that can clean the air continuously. Plants and microbes have a natural potential to transform or degrade pollutants. Hence, strategies that use this potential of living biomass to remediate air pollution seem to be promising. The simplest future trend can be planting suitable plant-microbe species capable of removing air pollutants like SO2, CO2, CO, NOX and particulate matter (PM) along roadsides and inside the buildings. Established wastewater treatment strategies such as microbial fuel cells (MFC) and constructed wetlands (CW) can be suitably modified to ameliorate air pollution. Green architecture involving green walls and green roofs is facile and aesthetic, providing urban ecosystem services. Certain microbe-based bioreactors such as bioscrubbers and biofilters may be useful in small confined spaces. Several generative models have been developed to assist with planning and managing green spaces in urban locales. The physiological limitations of using living organisms can be circumvent by applying biotechnology and transgenics to improve their potential. This review provides a comprehensive update on not just the plants and associated microbes for the mitigation of air pollution, but also lists the technologies that are available and/or can be modified and used for air pollution control. The article also gives a detailed analysis of this topic in the form of strengths-weaknesses-opportunities-challenges (SWOC). The strategies mentioned in this review would help to attain corporate Environmental Social and Governance (ESG) and Sustainable Development Goals (SDGs), while reducing carbon footprint in the urban scenario. The review aims to emphasise that urbanization is possible while tackling air pollution using facile, green techniques involving plants and associated microbes.
Collapse
Affiliation(s)
- Anina James
- J & K Pocket, Dilshad Garden, Delhi, 110095, India.
| | - Eldon R Rene
- Department of Water Supply, Sanitation and Environmental Engineering, IHE Delft Institute for Water Education, Westvest 7, 2611AX, Delft, the Netherlands
| | - Abubakar M Bilyaminu
- Department of Water Supply, Sanitation and Environmental Engineering, IHE Delft Institute for Water Education, Westvest 7, 2611AX, Delft, the Netherlands
| | | |
Collapse
|
4
|
Sharma S, Shaikh S, Mohana S, Desai C, Madamwar D. Current trends in bioremediation and bio-integrated treatment of petroleum hydrocarbons. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023:10.1007/s11356-023-30479-8. [PMID: 37861831 DOI: 10.1007/s11356-023-30479-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2023] [Accepted: 10/11/2023] [Indexed: 10/21/2023]
Abstract
Petroleum hydrocarbons and their derivatives constitute the leading group of environmental pollutants worldwide. In the present global scenario, petroleum and natural gas production, exploration, petroleum refining, and other anthropogenic activities produce huge amounts of hazardous petroleum wastes that accumulate in the terrestrial and marine environment. Due to their carcinogenic, neurotoxic, and mutagenic characteristics, petroleum pollutants pose severe risks to human health and exert ecotoxicological effects on the ecosystems. To mitigate petroleum hydrocarbons (PHs) contamination, implementing "green technologies" for effective cleanup and restoration of an affected environment is considered as a pragmatic approach. This review provides a comprehensive outline of newly emerging bioremediation technologies, for instance; nanobioremediation, electrokinetic bioremediation, vermiremediation, multifunctional and sustainably implemented on-site applied biotechnologies such as; natural attenuation, biostimulation, bioaugmentation, bioventing, phytoremediation and multi-process hybrid technologies. Additionally, the scope of the effectiveness and limitations of individual technologies in treating the petroleum hydrocarbon polluted sites are also evaluated.
Collapse
Affiliation(s)
- Shruti Sharma
- Department of Biological Sciences, P. D. Patel Institute of Applied Sciences, Charotar University of Science and Technology, CHARUSAT Campus, Changa, Anand, Gujarat, 388421, India
| | - Shabnam Shaikh
- Department of Biological Sciences, P. D. Patel Institute of Applied Sciences, Charotar University of Science and Technology, CHARUSAT Campus, Changa, Anand, Gujarat, 388421, India
| | - Sarayu Mohana
- Department of Microbiology, Mount Carmel College (Autonomous), Palace Road, Bengaluru, Karnataka, 560052, India
| | - Chirayu Desai
- Department of Environmental Biotechnology, Gujarat Biotechnology University, Near Gujarat International Finance Tech (GIFT) - City, Gandhinagar, Gujarat, 382355, India
| | - Datta Madamwar
- Department of Biological Sciences, P. D. Patel Institute of Applied Sciences, Charotar University of Science and Technology, CHARUSAT Campus, Changa, Anand, Gujarat, 388421, India.
| |
Collapse
|
5
|
Kaur G, Lecka J, Krol M, Brar SK. Novel BTEX-degrading strains from subsurface soil: Isolation, identification and growth evaluation. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 335:122303. [PMID: 37558195 DOI: 10.1016/j.envpol.2023.122303] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/02/2023] [Revised: 07/05/2023] [Accepted: 08/01/2023] [Indexed: 08/11/2023]
Abstract
Monoaromatic hydrocarbons such as benzene, toluene, ethylbenzene, and o, m, and p-xylenes (BTEX) are high-risk pollutants because of their mutagenic and carcinogenic nature. These pollutants are found with elevated levels in groundwater and soil in Canada at several contaminated sites. The intrinsic microbes present in the subsurface have the potential to degrade pollutants by their metabolic pathways and convert them to non-toxic products. However, the low subsurface temperature (5-10 °C) limits their growth and degradation ability. This study examined the feasibility of subsurface heat augmentation using geothermal heating for BTEX bioremediation. Novel potent BTEX-degrading bacterial strains were isolated from soil at 3.0, 42.6, and 73.2 m depths collected from a geothermal borehole during installation and screened using an enrichment technique. The selected strains were identified with Sanger sequencing and phylogenetic tree analysis, revealing that all the strains except Bacillus subtilis are novel with respective to BTEX degradation. The isolates, Microbacterium esteraromaticum and Bacillus infantis showed the highest degradation with 67.98 and 65.2% for benzene, 72.8 and 71.02% for toluene, 77.52 and 76.44% for ethylbenzene, and 74.58 and 74.04% for xylenes respectively. Further, temperature influence at 15 ± 1 °C, 28 ± 1 °C and 40 ± 1 °C was observed, which showed increased growth by two-fold and on average 35-49% more biodegradation at higher temperatures. Results showed that temperature is a positive stimulant for bioremediation, hence geothermal heating could also be a stimulant for in-situ bioremediation.
Collapse
Affiliation(s)
- Gurpreet Kaur
- Department of Civil Engineering, Lassonde School of Engineering, York University, North York, Toronto, Ontario, M3J 1P3, Canada
| | - Joanna Lecka
- Institut National de La Recherche Scientifique, Centre-Eau, Terre et Environment, 490, Rue de La Couronne, Quebec, G1K 9A9, Canada
| | - Magdalena Krol
- Department of Civil Engineering, Lassonde School of Engineering, York University, North York, Toronto, Ontario, M3J 1P3, Canada
| | - Satinder Kaur Brar
- Department of Civil Engineering, Lassonde School of Engineering, York University, North York, Toronto, Ontario, M3J 1P3, Canada.
| |
Collapse
|
6
|
Huizenga JM, Semprini L. Influence of growth substrate and contaminant mixtures on the degradation of BTEX and MTBE by Rhodococcus rhodochrous ATCC strain 21198. Biodegradation 2023; 34:461-475. [PMID: 37329399 PMCID: PMC10803100 DOI: 10.1007/s10532-023-10037-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2022] [Accepted: 05/30/2023] [Indexed: 06/19/2023]
Abstract
The degradation of the prevalent environmental contaminants benzene, toluene, ethylbenzene, and xylenes (BTEX) along with a common co-contaminant methyl tert-butyl ether (MTBE) by Rhodococcus rhodochrous ATCC Strain 21198 was investigated. The ability of 21198 to degrade these contaminants individually and in mixtures was evaluated with resting cells grown on isobutane, 1-butanol, and 2-butanol. Growth of 21198 in the presence of BTEX and MTBE was also studied to determine the growth substrate that best supports simultaneous microbial growth and contaminants degradation. Cells grown on isobutane, 1-butanol, and 2-butanol were all capable of degrading the contaminants, with isobutane grown cells exhibiting the most rapid degradation rates and 1-butanol grown cells exhibiting the slowest. However, in conditions where BTEX and MTBE were present during microbial growth, 1-butanol was determined to be an effective substrate for supporting concurrent growth and contaminant degradation. Contaminant degradation was found to be a combination of metabolic and cometabolic processes. Evidence for growth of 21198 on benzene and toluene is presented along with a possible transformation pathway. MTBE was cometabolically transformed to tertiary butyl alcohol, which was also observed to be transformed by 21198. This work demonstrates the possible utility of primary and secondary alcohols to support biodegradation of monoaromatic hydrocarbons and MTBE. Furthermore, the utility of 21198 for bioremediation applications has been expanded to include BTEX and MTBE.
Collapse
Affiliation(s)
- Juliana M Huizenga
- School of Chemical, Biological, and Environmental Engineering, Oregon State University, 105 SW 26th St, Corvallis, OR, 97331, USA
| | - Lewis Semprini
- School of Chemical, Biological, and Environmental Engineering, Oregon State University, 105 SW 26th St, Corvallis, OR, 97331, USA.
| |
Collapse
|
7
|
Wu HJ, Du XY, Wu WJ, Zheng J, Song JY, Xie JC. Metagenomic analysis reveals specific BTEX degrading microorganisms of a bacterial consortium. AMB Express 2023; 13:48. [PMID: 37195357 DOI: 10.1186/s13568-023-01541-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2022] [Accepted: 03/23/2023] [Indexed: 05/18/2023] Open
Abstract
Petroleum hydrocarbon contamination is of environmental and public health concerns due to its toxic components. Bioremediation utilizes microbial organisms to metabolism and remove these contaminants. The aim of this study was to enrich a microbial community and examine its potential to degrade petroleum hydrocarbon. Through successive enrichment, we obtained a bacterial consortium using crude oil as sole carbon source. The 16 S rRNA gene analysis illustrated the structural characteristics of this community. Metagenomic analysis revealed the specific microbial organisms involved in the degradation of cyclohexane and all the six BTEX components, with a demonstration of the versatile metabolic pathways involved in these reactions. Results showed that our consortium contained the full range of CDSs that could potentially degrade cyclohexane, benzene, toluene, and (o-, m-, p-) xylene completely. Interestingly, a single taxon that possessed all the genes involved in either the activation or the central intermediates degrading pathway was not detected, except for the Novosphingobium which contained all the genes involved in the upper degradation pathway of benzene, indicating the synergistic interactions between different bacterial genera during the hydrocarbon degradation.
Collapse
Affiliation(s)
- Hui-Jun Wu
- State Key Laboratory of Petroleum Pollution Control, National Petroleum Corporation Research Institute of Safety and Environmental Technology, 102206, Beijing, China.
| | - Xian-Yuan Du
- State Key Laboratory of Petroleum Pollution Control, National Petroleum Corporation Research Institute of Safety and Environmental Technology, 102206, Beijing, China
| | - Wen-Jing Wu
- State Key Laboratory of Petroleum Pollution Control, National Petroleum Corporation Research Institute of Safety and Environmental Technology, 102206, Beijing, China
- College of Life Science, Northwest University, 710000, Xian, China
| | - Jin Zheng
- State Key Laboratory of Petroleum Pollution Control, National Petroleum Corporation Research Institute of Safety and Environmental Technology, 102206, Beijing, China
| | - Jia-Yu Song
- State Key Laboratory of Petroleum Pollution Control, National Petroleum Corporation Research Institute of Safety and Environmental Technology, 102206, Beijing, China
| | - Jia-Cai Xie
- State Key Laboratory of Petroleum Pollution Control, National Petroleum Corporation Research Institute of Safety and Environmental Technology, 102206, Beijing, China
| |
Collapse
|
8
|
Sánchez-León E, Huang-Lin E, Amils R, Abrusci C. Production and Characterisation of an Exopolysaccharide by Bacillus amyloliquefaciens: Biotechnological Applications. Polymers (Basel) 2023; 15:polym15061550. [PMID: 36987330 PMCID: PMC10056187 DOI: 10.3390/polym15061550] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2023] [Revised: 03/17/2023] [Accepted: 03/18/2023] [Indexed: 03/30/2023] Open
Abstract
The Bacillus amyloliquefaciens RT7 strain was isolated from an extreme acidic environment and identified. The biodegradation capabilities of the strain using different carbon sources (glucose, oleic acid, Tween 80, PEG 200, and the combination of glucose-Tween 80) were evaluated via an indirect impedance technique. The glucose-Tween 80 combination was further studied using nuclear magnetic resonance (NMR). The exopolysaccharide (EPSRT7) that had been produced with the strain when biodegrading glucose-Tween 80 was isolated and characterised using different techniques (GC-MS, HPLC/MSMS, ATR-FTIR, TGA, and DSC), and its molecular weight was estimated. The results show that the average molecular weight of EPSRT7 was approximately 7.0794 × 104 Da and a heteropolysaccharide composed of mannose, glucose, galactose, and xylose (molar ratio, 1:0.5:0.1:0.1) with good thermostability. EPSRT7 showed good emulsifying activity against different natural oils and hydrocarbons at high concentrations (2 mg/mL) and at the studied pH range (3.1-7.2). It also presented good emulsifying activity compared to that of commercial emulsifiers. Lastly, EPSRT7 showed antioxidant capacity for different free radicals, a lack of cytotoxicity, and antioxidant activity at the cellular level. EPSRT7 has promising applications in bioremediation processes and other industrial applications.
Collapse
Affiliation(s)
- Enrique Sánchez-León
- Departamento de Biología Molecular, Facultad de Ciencias, Universidad Autónoma de Madrid, UAM, Cantoblanco, 28049 Madrid, Spain
| | - Elisa Huang-Lin
- Departamento de Biología Molecular, Facultad de Ciencias, Universidad Autónoma de Madrid, UAM, Cantoblanco, 28049 Madrid, Spain
| | - Ricardo Amils
- Departamento de Biología Molecular, Facultad de Ciencias, Universidad Autónoma de Madrid, UAM, Cantoblanco, 28049 Madrid, Spain
- Centro de Biología Molecular Severo Ochoa, CSIC-UAM, 28049 Madrid, Spain
| | - Concepción Abrusci
- Departamento de Biología Molecular, Facultad de Ciencias, Universidad Autónoma de Madrid, UAM, Cantoblanco, 28049 Madrid, Spain
- Centro de Biología Molecular Severo Ochoa, CSIC-UAM, 28049 Madrid, Spain
| |
Collapse
|
9
|
Ngara TR, Zeng P, Zhang H. mibPOPdb: An online database for microbial biodegradation of persistent organic pollutants. IMETA 2022; 1:e45. [PMID: 38867901 PMCID: PMC10989864 DOI: 10.1002/imt2.45] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/27/2022] [Revised: 07/04/2022] [Accepted: 07/11/2022] [Indexed: 06/14/2024]
Abstract
Microbial biodegradation of persistent organic pollutants (POPs) is an attractive, ecofriendly, and cost-efficient clean-up technique for reclaiming POP-contaminated environments. In the last few decades, the number of publications documenting POP-degrading microbes, enzymes, and experimental data sets has continuously increased, necessitating the development of a dedicated web resource that catalogs consolidated information on POP-degrading microbes and tools to facilitate integrative analysis of POP degradation data sets. To address this knowledge gap, we developed the Microbial Biodegradation of Persistent Organic Pollutants Database (mibPOPdb) by accumulating microbial POP degradation information from the public domain and manually curating published scientific literature. Currently, in mibPOPdb, there are 9215 microbial strain entries, including 184 gene (sub)families, 100 enzymes, 48 biodegradation pathways, and 593 intermediate compounds identified in POP-biodegradation processes, and information on 32 toxic compounds listed under the Stockholm Convention environmental treaty. Besides the standard database functionalities, which include data searching, browsing, and retrieval of database entries, we provide a suite of bioinformatics services to facilitate comparative analysis of users' own data sets against mibPOPdb entries. Additionally, we built a Graph Neural Network-based prediction model for the biodegradability classification of chemicals. The predictive model exhibited a good biodegradability classification performance and high prediction accuracy. mibPOPdb is a free data-sharing platform designated to promote research in microbial-based biodegradation of POPs and fills a long-standing gap in environmental protection research. Database URL: http://mibpop.genome-mining.cn/.
Collapse
Affiliation(s)
- Tanyaradzwa R. Ngara
- Department of Biotechnology, College of Life Science and Technology, MOE KEY Laboratory of Molecular BiophysicsHuazhong University of Science and TechnologyWuhanChina
| | - Peiji Zeng
- Department of Biotechnology, College of Life Science and Technology, MOE KEY Laboratory of Molecular BiophysicsHuazhong University of Science and TechnologyWuhanChina
| | - Houjin Zhang
- Department of Biotechnology, College of Life Science and Technology, MOE KEY Laboratory of Molecular BiophysicsHuazhong University of Science and TechnologyWuhanChina
| |
Collapse
|
10
|
Süß M, De Visscher A. Experimental and numerical study of steady state stability in a toluene biodegrading biofilter. Sci Rep 2022; 12:12510. [PMID: 35869120 PMCID: PMC9307773 DOI: 10.1038/s41598-022-15620-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2022] [Accepted: 06/27/2022] [Indexed: 11/09/2022] Open
Abstract
Different steady states in a toluene biodegrading biofilter were explored experimentally and numerically. Experimental results showed that a gradual increase of the toluene inlet concentration over several weeks leads to a consistently low exit concentration, with a drastic increase at an inlet concentration change from 7.7 to 8.5 g m−3, indicating an alteration in steady state. A significant and sudden drop in the removal efficiency from 88 to 46% was observed. A model that includes nitrogen and biomass dynamics predicted results matching the experimental biofilter performance well, but the timing of the concentration jump was not reproduced exactly. A model that assumes a gradual increase of toluene inlet concentration of 0.272 g m−3 per day, accurately reproduced the experimental relationship between inlet and outlet concentration. Although there was variation between experimental and simulated results, a clear confirmation of the jump from one steady state to another was found.
Collapse
|
11
|
Ekpe OD, Choo G, Choi Y, Jeon J, Oh JE. Long-term degradation of toluene and phenol in soil: Identification of transformation products and pathways via HRMS-based suspect and non-target screening. JOURNAL OF HAZARDOUS MATERIALS 2022; 430:128429. [PMID: 35739654 DOI: 10.1016/j.jhazmat.2022.128429] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/15/2021] [Revised: 01/25/2022] [Accepted: 02/02/2022] [Indexed: 06/15/2023]
Abstract
In this study, the long-term fate of toluene and phenol in the soil was investigated, and the transformation products (TPs) and pathways of these compounds were studied by a high resolution mass spectrometry (HRMS)-based suspect and non-target screening approach for the first time, and 9 and 12 transformation products were identified for toluene and phenol, respectively in the lab-exposed soil samples. Salicylaldehyde, 4-hydroxybenzaldehyde, and benzaldehyde were identified in toluene-contaminated field soil samples for the first time, and the main mechanisms involved in the biodegradation and detoxification of toluene and phenol in soil were oxidation, carboxylation, dehydroxylation, and ring fission amongst others. 2-oxoglutarate, TP165-A, TP165-B, TP172, and TP195 were identified as novel phenol transformation products, while salicylaldehyde, 2-oxoglutarate, TP165-A, and TP165-B were identified as novel toluene transformation products, providing new possible evidence for additional degradation pathways, which could give new insights into the fate of toluene and phenol during the natural attenuation process in the environment. Finally, salicylaldehyde, 4-OH-benzaldehyde, and 4-OH-benzoic acid which were detected at Level 1 identification confidence were suggested as indicator chemicals of toluene and phenol exposure in the contaminated field.
Collapse
Affiliation(s)
- Okon Dominic Ekpe
- Department of Civil and Environmental Engineering, Pusan National University, Busan 46241, Republic of Korea
| | - Gyojin Choo
- Department of Civil and Environmental Engineering, Pusan National University, Busan 46241, Republic of Korea; National Fishery Products Quality Management Service, Busan 51140, Republic of Korea
| | - Younghun Choi
- Department of Environmental Engineering, Changwon National University, Changwon, Republic of Korea
| | - Junho Jeon
- Department of Environmental Engineering, Changwon National University, Changwon, Republic of Korea.
| | - Jeong-Eun Oh
- Department of Civil and Environmental Engineering, Pusan National University, Busan 46241, Republic of Korea.
| |
Collapse
|
12
|
Wojtowicz K, Steliga T, Kapusta P, Brzeszcz J, Skalski T. Evaluation of the Effectiveness of the Biopreparation in Combination with the Polymer γ-PGA for the Biodegradation of Petroleum Contaminants in Soil. MATERIALS (BASEL, SWITZERLAND) 2022; 15:400. [PMID: 35057118 PMCID: PMC8778143 DOI: 10.3390/ma15020400] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/17/2021] [Revised: 12/31/2021] [Accepted: 01/04/2022] [Indexed: 11/30/2022]
Abstract
Biodegradation is a method of effectively removing petroleum hydrocarbons from the natural environment. This research focuses on the biodegradation of aliphatic hydrocarbons, monoaromatic hydrocarbons such as benzene, toluene, ethylbenzene, and all three xylene isomers (BTEX) and polycyclic aromatic hydrocarbons (PAHs) as a result of soil inoculation with a biopreparation A1 based on autochthonous microorganisms and a biopreparation A1 with the addition of γ-PGA. The research used biopreparation A1 made of the following strains: Dietzia sp. IN133, Gordonia sp. IN138 Mycolicibacterium frederiksbergense IN53, Rhodococcus erythropolis IN119, Rhodococcus sp. IN136 and Pseudomonas sp. IN132. The experiments were carried out in laboratory conditions (microbiological tests, respirometric tests, and in semi-technical conditions (ex-situ prism method). The biodegradation efficiency was assessed on the basis of respirometric tests, chromatographic analyses and toxicological tests. As a result of inoculation of AB soil with the biopreparation A1 within 6 months, a reduction of total petroleum hydrocarbons (TPH) (66.03%), BTEX (80.08%) and PAHs (38.86%) was achieved and its toxicity was reduced. Inoculation of AB soil with the biopreparation A1 with the addition of γ-PGA reduced the concentration of TPH, BTEX and PAHs by 79.21%, 90.19%, and 51.18%, respectively, and reduced its toxicity. The conducted research has shown that the addition of γ-PGA affects the efficiency of the biodegradation process of petroleum pollutants, increasing the degree of TPH biodegradation by 13.18%, BTEX by 10.11% and PAHs by 12.32% compared to pure biopreparation A1.
Collapse
Affiliation(s)
- Katarzyna Wojtowicz
- Oil and Gas Institute—National Research Institute, Lubicz 25 A, 31-503 Krakow, Poland; (T.S.); (P.K.); (J.B.)
| | - Teresa Steliga
- Oil and Gas Institute—National Research Institute, Lubicz 25 A, 31-503 Krakow, Poland; (T.S.); (P.K.); (J.B.)
| | - Piotr Kapusta
- Oil and Gas Institute—National Research Institute, Lubicz 25 A, 31-503 Krakow, Poland; (T.S.); (P.K.); (J.B.)
| | - Joanna Brzeszcz
- Oil and Gas Institute—National Research Institute, Lubicz 25 A, 31-503 Krakow, Poland; (T.S.); (P.K.); (J.B.)
| | - Tomasz Skalski
- Biotechnology Centre, Silesian University of Technology, Krzywoustego 8, 44-100 Gliwice, Poland;
| |
Collapse
|
13
|
Huang L, Ye J, Jiang K, Wang Y, Li Y. Oil contamination drives the transformation of soil microbial communities: Co-occurrence pattern, metabolic enzymes and culturable hydrocarbon-degrading bacteria. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2021; 225:112740. [PMID: 34482066 DOI: 10.1016/j.ecoenv.2021.112740] [Citation(s) in RCA: 27] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/18/2021] [Revised: 08/12/2021] [Accepted: 08/30/2021] [Indexed: 05/16/2023]
Abstract
The land-based oil extraction activity has led to serious pollution of the soil. While microbes may play an important role in the remediation of contaminated soils, ecological effects of oil pollution on soil microbial relationships remain poorly understood. Here, typical contaminated soils and undisturbed soils from seven oilfields of China were investigated in terms of their physicochemical characteristics, indigenous microbial assemblages, bacterial co-occurrence patterns, and metabolic enzymes. Network visualization based on k-core decomposition illustrated that oil pollution reduced correlations between co-existing bacteria. The core genera were altered to those related with oil metabolism (Pseudarthrobacter, Alcanivorax, Sphingomonas, Chromohalobacter and Nocardioides). Under oil pollution pressure, the indigenous bacteria Gammaproteobacteria was domesticated as biomarker and the enzyme expression associated with the metabolism of toxic benzene, toluene, ethylbenzene, xylene and polycyclic aromatic hydrocarbons was enhanced. Functional pathways of xenobiotics biodegradation were also stimulated under oil contamination. Finally, twelve culturable hydrocarbon-degrading microbes were isolated from these polluted soils and classified into Stenotrophomonas, Delftia, Pseudomonas and Bacillus. These results show that the soil microbial communities are transformed under oil pollution stress, and also provide useful information for future bioremediation processes.
Collapse
Affiliation(s)
- Liping Huang
- College of Environment and Ecology, Chongqing University, Chongqing 400045, China; Key Laboratory of Three Gorges Reservoir Region's Eco-Environment, Ministry of Education, Chongqing University, Chongqing 400045, China
| | - Jiangyu Ye
- College of Environment and Ecology, Chongqing University, Chongqing 400045, China; Key Laboratory of Three Gorges Reservoir Region's Eco-Environment, Ministry of Education, Chongqing University, Chongqing 400045, China.
| | - Kemei Jiang
- College of Environment and Ecology, Chongqing University, Chongqing 400045, China; Key Laboratory of Three Gorges Reservoir Region's Eco-Environment, Ministry of Education, Chongqing University, Chongqing 400045, China
| | - Yichao Wang
- College of Environment and Ecology, Chongqing University, Chongqing 400045, China; Key Laboratory of Three Gorges Reservoir Region's Eco-Environment, Ministry of Education, Chongqing University, Chongqing 400045, China
| | - Yunyi Li
- College of Environment and Ecology, Chongqing University, Chongqing 400045, China; Key Laboratory of Three Gorges Reservoir Region's Eco-Environment, Ministry of Education, Chongqing University, Chongqing 400045, China
| |
Collapse
|
14
|
Ambient Air Pollution Shapes Bacterial and Fungal Ivy Leaf Communities. Microorganisms 2021; 9:microorganisms9102088. [PMID: 34683409 PMCID: PMC8540654 DOI: 10.3390/microorganisms9102088] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2021] [Revised: 09/27/2021] [Accepted: 10/01/2021] [Indexed: 01/04/2023] Open
Abstract
Ambient air pollution exerts deleterious effects on our environment. Continuously exposed to the atmosphere, diverse communities of microorganisms thrive on leaf surfaces, the phylloplane. The composition of these communities is dynamic, responding to many environmental factors including ambient air pollution. In this field study, over a 2 year period, we sampled Hedera helix (ivy) leaves at six locations exposed to different ambient air pollution conditions. Daily, we monitored ambient black carbon (BC), PM2.5, PM10, nitrogen dioxide, and ozone concentrations and found that ambient air pollution led to a 2–7-fold BC increase on leaves, the phylloplane BC load. Our results further indicated that the phylloplane BC load correlates with the diversity of bacterial and fungal leaf communities, impacting diversity more than seasonal effects. The bacterial genera Novosphingobium, Hymenobacter, and Methylorubrum, and the fungal genus Ampelomyces were indicators for communities exposed to the highest phylloplane BC load. Parallel to this, we present one fungal and two bacterial phylloplane strains isolated from an air-polluted environment able to degrade benzene, toluene, and/or xylene, including a genomics-based description of the degradation pathways involved. The findings of this study suggest that ambient air pollution shapes microbial leaf communities, by affecting diversity and supporting members able to degrade airborne pollutants.
Collapse
|